[Home] | [Total List]

[176633_at]

Description JC8.5 /REP_DB=WormBase Gene ID /WP=CE17988 /GB=CAB05232.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 64      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 74      6grp_total > 55      4grp_total > 59      6grp_highest_sub > Cu      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 426
1 2 3 4 range
A 547.9
(-0.6)
P 		766.7
(3)
P 		689
(1.7)
P 		403.4
(-3)
P 		363
B 562.4
(-0.8)
P 		603.9
(-0.2)
P 		827.8
(3)
P 		409.9
(-3)
P 		418
C 719.7
(2.4)
P 		758
(3)
P 		745.8
(2.8)
P 		401.7
(-3)
P 		356
avr 610
(0.5) 		709.5
(2.2) 		754.2
(3) 		405
(-3) 		349

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 473
1 2 3 4 5 6 range
A 705.6
(1.2)
P 		444.7
(-2.8)
P 		823.6
(3)
P 		500.4
(-2)
P 		432.3
(-3)
P 		629
(0)
P 		391
B 805
(3)
P 		571
(-1.7)
P 		674.6
(0.4)
P 		508.3
(-3)
P 		636.2
(-0.4)
P 		722
(1.3)
P 		297
C 521.1
(-0.4)
P 		598.9
(0.7)
P 		695.7
(2.2)
P 		744
(2.9)
P 		350.3
(-3)
P 		751.1
(3)
P 		401
avr 677.2
(1.7) 		538.2
(-1.5) 		731.3
(3) 		584.2
(-0.4) 		472.9
(-3) 		700.7
(2.3) 		258
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 201
1 2 3 4 range
A 199.5
(3)
P 		166.4
(1.6)
P 		180.1
(2.2)
P 		59.1
(-3)
P 		140
B 179.3
(2.3)
P 		149.1
(0.5)
P 		191.8
(3)
P 		87.4
(-3)
P 		104
C 238.2
(2.3)
P 		217.9
(1.7)
P 		259.9
(3)
P 		67.7
(-3)
P 		192
avr 205.7
(2.8) 		177.8
(1.6) 		210.6
(3) 		71.4
(-3) 		139

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 167
1 2 3 4 5 6 range
A 130.1
(-2.6)
P 		158.1
(0.6)
P 		179.4
(3)
P 		126.9
(-3)
P 		130.5
(-2.6)
P 		153.1
(-0)
P 		53
B 280.1
(3)
P 		190.1
(-0.7)
P 		163.8
(-1.8)
P 		134.6
(-3)
P 		258.5
(2.1)
P 		269.2
(2.6)
P 		146
C 193.2
(0.5)
P 		182.7
(0)
P 		177.1
(-0.2)
P 		149.6
(-1.4)
P 		113.3
(-3)
P 		251.4
(3)
P 		138
avr 201.1
(1.4) 		177
(-0.3) 		173.4
(-0.5) 		137
(-3) 		167.4
(-0.9) 		224.6
(3) 		88
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176633_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10305
Sequence Type Exemplar sequence
Representative Public ID JC8.5 NCBI
Target Description JC8.5 /REP_DB=WormBase Gene ID /WP=CE17988 /GB=CAB05232.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070146(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070146 NCBI Caenorhabditis elegans JC8.5 (JC8.5) mRNA, complete cds. 11/11 None
SNAP00000009003 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13244310:13246967:1 11/11 None
GENEFINDER00000009015 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13244293:13247121:1 11/11 None
JC8.5 ENSEMBL cdna:known chromosome:CEL140:IV:13244293:13246986:1 gene:JC8.5 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:13245217-13246973(+) 99.49 100.0
Public Domain and Genome References
Gene Title
Ensembl JC8.5
Entrez Gene 186814 Entrez gene
SwissProt Q95QD5 EMBL-EBI
WormBase CE38202 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259446_AT cytochrome c oxidase assembly protein CtaG / Cox11 family at
CANINE_2:CFAAFFX.26541.1.S1_AT similar to COX11 homolog cfa
DROSOPHILA_2:1638621_AT dm
CHICKEN:GGA.2745.1.S1_AT similar to RIKEN cDNA 2010004I09 gga
CHICKEN:GGA.2745.1.S1_S_AT similar to RIKEN cDNA 2010004I09 gga
HG-U95AV2:34723_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133_PLUS_2:211727_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133A:211727_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133A_2:211727_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133_PLUS_2:214277_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133A_2:214277_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133A:214277_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133A:203551_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133_PLUS_2:203551_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-FOCUS:203551_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133A_2:203551_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HU35KSUBA:D58082_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HU35KSUBD:RC_AA194498_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HU35KSUBD:RC_AA450001_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HUGENEFL:U79270_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:G4758033_3P_A_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:G13543474_3P_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:HS.241515.2.A1_3P_X_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:HS.241515.2.A1_3P_S_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:HS.241515.2.A1_3P_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HU35KSUBB:RC_H51293_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:HS.32124.0.A1_3P_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:HS.153739.0.A1_3P_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133B:235053_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133_PLUS_2:235053_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133_PLUS_2:239760_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U133B:239760_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U95B:50897_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U95D:74691_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
HG-U95E:83440_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
U133_X3P:214277_3P_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) hs
MG-U74BV2:109588_R_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) mm
MG-U74CV2:170663_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) mm
MOE430B:1429188_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) mm
MOUSE430_2:1429188_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) mm
RAE230B:1378379_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
RAT230_2:1378379_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
RAE230B:1393099_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
RAT230_2:1393099_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
RAE230A:1376826_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
RAT230_2:1376826_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
RG-U34B:RC_AA851486_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
RG-U34C:RC_AI237112_AT COX11 homolog, cytochrome c oxidase assembly protein (yeast) (predicted) rn
YEAST_2:1771526_AT Mitochondrial inner membrane protein required for delivery of copper to the Cox1p subunit of cytochrome c oxidase; association with mitochondrial ribosomes suggests that copper delivery may occur during translation of Cox1p Sc
Protein Similarities
Method ID Description E-Value
blast CAB05232 Hypothetical protein JC8.5 [Caenorhabditis elegans] ref|NP_502547.2| JC8.5 [Caenorhabditis elegans] 1.0E-150
blast CAE58636 Hypothetical protein CBG01804 [Caenorhabditis briggsae] 1.0E-125
blast CAB05232 Hypothetical protein JC8.5 [Caenorhabditis elegans] ref|NP_502547.2| JC8.5 [Caenorhabditis elegans] 1.0E-124
blast CAE58636 Hypothetical protein CBG01804 [Caenorhabditis briggsae] 1.0E-117
blast CAB05232 Hypothetical protein JC8.5 [Caenorhabditis elegans] ref|NP_502547.2| JC8.5 [Caenorhabditis elegans] 1.0E-112
blast CAE58636 Hypothetical protein CBG01804 [Caenorhabditis briggsae] 1.0E-110
blast AAF52256 CG31648-PA [Drosophila melanogaster] gb|AAR96162.1| RE57459p [Drosophila melanogaster] ref|NP_723086.1| CG31648-PA [Drosophila melanogaster] 2.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR007533 EMBL-EBI Cytochrome c oxidase assembly protein CtaG/Cox11 2.3E-96
Pfam IPR007533 EMBL-EBI Cytochrome c oxidase assembly protein CtaG/Cox11 2.3E-96
Pfam IPR007533 EMBL-EBI Cytochrome c oxidase assembly protein CtaG/Cox11 2.3E-96
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502547.2 1 61-83
SNAP00000009003 1 31-53
GENEFINDER00000009015 1 61-83
Sequence
Target Sequence 
>C. ELEGANS:176633_AT
ggatgcacgtttgctgcaattccagcttatcgaattttctgcgagcaaacttcgttcggc
gggcttacacaggtggcgaaggactttgataagattgcaaatatgaagaaatgcgaggat
cgtctcattcgagtacaatttaattctgatgttccgtcgagtatgagatgggaattcaaa
ccacaacaacacgagatctacgttcaccctggagaaactgcattagccttctacacagct
cgtaatcccaccgacaaaccaatcatcggaatctccagctacaacttgacaccatttcaa
gccgcatattatttcaacaaaattcaatgtttttgtttcgaagaacaaattctgaatccc
ggcgaacaagtggatcttcctgtattcttttatattgatcctgattatgttaatgatcca
gcactggaatatttggattcaattcttctcagttatactttcttcgaggcaaaatctgga
ctgaaacttccagatccatttgatccaaagaatcgaccatcaattgcaccatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGCACGTTTGCTGCAATTCCAG 285 513 37 Antisense
TCTGCGAGCAAACTTCGTTCGGCGG 423 607 74 Antisense
GCGAGGATCGTCTCATTCGAGTACA 249 291 149 Antisense
TAATTCTGATGTTCCGTCGAGTATG 125 635 177 Antisense
CAACACGAGATCTACGTTCACCCTG 511 189 223 Antisense
TAGCCTTCTACACAGCTCGTAATCC 666 649 260 Antisense
ATCTCCAGCTACAACTTGACACCAT 542 33 307 Antisense
GACACCATTTCAAGCCGCATATTAT 105 369 324 Antisense
GGATCTTCCTGTATTCTTTTATATT 300 509 408 Antisense
GGACTGAAACTTCCAGATCCATTTG 246 525 514 Antisense
AGAATCGACCATCAATTGCACCATC 506 75 545 Antisense
Sequence Source Affymetrix Proprietary Database